BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 039728
(263 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 78/170 (45%), Gaps = 31/170 (18%)
Query: 43 WVTVGKEYNKNELLR-----TVIKEFHSFSGQPTPVEIHKMEEMELITTLRGHLKDKNYM 97
WV+VGK+ L++ T + + SFS Q P+ I + ++ I LR H + +
Sbjct: 184 WVSVGKQDKSGLLMKLQNLCTRLDQDESFS-QRLPLNIEEAKDRLRILMLRKHPRS---L 239
Query: 98 VVFDDVWKIDFWGDVEHALLDNKKCGRIIVTTRHMNVAKACKSSSPVHIHELETLPPNEA 157
++ DDVW D W V A + +C +I++TTR +V + P ++ +E+ E
Sbjct: 240 LILDDVW--DSW--VLKAF--DSQC-QILLTTRDKSVTDSV--MGPKYVVPVESSLGKEK 290
Query: 158 ----WKLFCRKAXXXXXXXXXXXELKELSQDILGKCEGLPLAIVAVGGLL 203
LF +L E + I+ +C+G PL + +G LL
Sbjct: 291 GLEILSLFVN---------MKKADLPEQAHSIIKECKGSPLVVSLIGALL 331
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 44/167 (26%), Positives = 79/167 (47%), Gaps = 25/167 (14%)
Query: 43 WVTVGKEYNKNELLR-----TVIKEFHSFSGQPTPVEIHKMEEMELITTLRGHLKDKNYM 97
WV+VGK+ L++ T + + SFS Q P+ I + ++ I LR H + +
Sbjct: 190 WVSVGKQDKSGLLMKLQNLCTRLDQDESFS-QRLPLNIEEAKDRLRILMLRKHPRS---L 245
Query: 98 VVFDDVWKIDFWGDVEHALLDNKKCGRIIVTTRHMNVAKACKSSSPVHIHELET-LPPNE 156
++ DDVW D W V A + +C +I++TTR +V + P ++ +E+ L +
Sbjct: 246 LILDDVW--DSW--VLKAF--DSQC-QILLTTRDKSVTDSVMG--PKYVVPVESSLGKEK 296
Query: 157 AWKLFCRKAXXXXXXXXXXXELKELSQDILGKCEGLPLAIVAVGGLL 203
++ +L E + I+ +C+G PL + +G LL
Sbjct: 297 GLEIL------SLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALL 337
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 43/168 (25%), Positives = 80/168 (47%), Gaps = 27/168 (16%)
Query: 43 WVTVGKEYNKNELLRTV------IKEFHSFSGQPTPVEIHKMEEMELITTLRGHLKDKNY 96
WV++GK+ +K+ LL + + + SFS Q P+ I + ++ + LR H +
Sbjct: 184 WVSIGKQ-DKSGLLMKLQNLCMRLDQEESFS-QRLPLNIEEAKDRLRVLMLRKHPRS--- 238
Query: 97 MVVFDDVWKIDFWGDVEHALLDNKKCGRIIVTTRHMNVAKACKSSSPVHIHELET-LPPN 155
+++ DDVW D W V A + +C +I++TTR +V + P H+ +E+ L
Sbjct: 239 LLILDDVW--DPW--VLKAF--DNQC-QILLTTRDKSVTDSVMG--PKHVVPVESGLGRE 289
Query: 156 EAWKLFCRKAXXXXXXXXXXXELKELSQDILGKCEGLPLAIVAVGGLL 203
+ ++ +L + I+ +C+G PL + +G LL
Sbjct: 290 KGLEIL------SLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL 331
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 79/168 (47%), Gaps = 27/168 (16%)
Query: 43 WVTVGKEYNKNELLRTV------IKEFHSFSGQPTPVEIHKMEEMELITTLRGHLKDKNY 96
WV++GK+ +K+ LL + + + SFS Q P+ I + ++ + LR H +
Sbjct: 191 WVSIGKQ-DKSGLLMKLQNLCMRLDQEESFS-QRLPLNIEEAKDRLRVLMLRKHPRS--- 245
Query: 97 MVVFDDVWKIDFWGDVEHALLDNKKCGRIIVTTRHMNVAKACKSSSPVHIHELET-LPPN 155
+++ DDVW D W V A + +C +I++TT +V + P H+ +E+ L
Sbjct: 246 LLILDDVW--DPW--VLKAF--DNQC-QILLTTSDKSVTDSVMG--PKHVVPVESGLGRE 296
Query: 156 EAWKLFCRKAXXXXXXXXXXXELKELSQDILGKCEGLPLAIVAVGGLL 203
+ ++ +L + I+ +C+G PL + +G LL
Sbjct: 297 KGLEIL------SLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL 338
>pdb|2A14|A Chain A, Crystal Structure Of Human Indolethylamine N-
Methyltransferase With Sah
Length = 263
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 41 RAWVTVGKEYNKNELLRTVIKEFHSFSGQPTP 72
+ T G EY K+ L R + ++SF G P+P
Sbjct: 2 KGGFTGGDEYQKHFLPRDYLATYYSFDGSPSP 33
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.137 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,456,978
Number of Sequences: 62578
Number of extensions: 280223
Number of successful extensions: 644
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 5
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)